IS_cpp                  Interdaily Stability (IS)
IV_cpp                  Intradaily Variability (IV)
L5M10_cpp               Calculate L5/M10 Circadian Metrics
actiRhythm_colors       actiRhythm Color Generator
activity.balance.index
                        Activity Balance Index
activity.extrema        Generalized Least- and Most-Active Periods (MX
                        / LX)
activity.onset.offset   Activity Onset and Offset (Relative-Difference
                        Phase Markers)
agd.counts              Extract Counts from .agd Data
auto.calibrate          Auto-Calibrate Raw Acceleration to the Unit
                        Gravity Sphere
axivity.counts          Activity Counts from a Raw Axivity .cwa File
backend_info            Backend Information
chi.sq.periodogram      Chi-square (Sokolove-Bushell) Periodogram
circadian-analysis      Circadian Rhythm Analysis
circadian-fractal       Fractal and Complexity Metrics for Activity
                        Time Series
circadian-period        Endogenous Circadian Period Estimation
                        (Lomb-Scargle)
circadian-plots         Circadian Rhythm Visualizations
circadian.batch         Batch Circadian Analysis of Multiple AGD Files
circadian.daily         Per-Day Nonparametric Metrics
circadian.emd           Empirical Mode Decomposition of the Activity
                        Rhythm
circadian.flm           Functional Linear Model of the 24-Hour Activity
                        Profile
circadian.is.multiscale
                        Multi-resolution Interdaily Stability (IS)
circadian.onset.ci      Confidence Intervals for L5/M10 Onset Timing
circadian.period        Estimate Endogenous Circadian Period via the
                        Lomb-Scargle Periodogram
circadian.quotient      Circadian Quotient and Relative Amplitude from
                        a Cosinor Fit
circadian.raw           Circadian Analysis Directly from Raw
                        Acceleration
circadian.rhythm        Circadian Rhythm Analysis
circadian.spectrogram   Circadian Spectrogram (Period over Time)
circadian.ssa           Singular Spectrum Analysis of an Activity
                        Series
circadian.wavelet       Continuous Wavelet Transform of the Activity
                        Rhythm
circadian.workbook      Export a Full Circadian Analysis to an Excel
                        Workbook
circadian_cpp           Complete Circadian Analysis
composite.phase.deviation
                        Composite Phase Deviation (Fischer &
                        Roenneberg, 2016)
consensus.rhythmicity   Consensus Rhythmicity Across Methods
cosinor.analysis        Cosinor Analysis for Circadian Rhythm
cosinor.antilogistic    Anti-Logistic (Extended) Cosinor Analysis
                        (Marler et al. 2006)
cosinor.compare         Compare Cosinor Rhythms Between Two Groups
cosinor.confidence.ellipse
                        Joint Amplitude-Acrophase Confidence Ellipse
                        (Bingham et al. 1982)
cosinor.extended        Multi-Component Cosinor Analysis with Harmonics
cosinor.multicomponent
                        Multicomponent Cosinor with Model Selection
counts.from.data.frame
                        Activity Counts from a Data Frame
cpp_available           Check C++ Availability
curve.registration      Curve Registration of Daily Activity Profiles
detect.nonwear.choi     Choi (2011) Non-Wear Detection
detect.nonwear.raw      Non-Wear Detection from Raw Acceleration
detect.nonwear.troiano
                        Troiano (2008) Non-Wear Detection
dichotomy.index         Dichotomy Index (I < O)
example_agd             Get Path to Example AGD Files
example_raw             Synthetic Raw Acceleration Recording
fractal.dfa             Detrended Fluctuation Analysis (DFA)
geneactiv.counts        Activity Counts from a Raw GENEActiv .bin File
gt3x.counts             Activity Counts from a Raw .gt3x File
gt3x.to.agd             Convert a Raw .gt3x File to an .agd File
has.inclinometer        Check if AGD Data Has Inclinometer Information
hilbert.huang           Hilbert-Huang Instantaneous Phase and Frequency
intradaily.variability.multiscale
                        Multiscale Intradaily Variability (IVm)
lids                    Locomotor Inactivity During Sleep (LIDS)
mfdfa                   Multifractal Detrended Fluctuation Analysis
                        (MF-DFA)
multiscale.entropy      Multiscale Sample Entropy (MSE)
period.ci               Confidence Interval for the Endogenous
                        Circadian Period
phase.concentration     Phase Concentration Tests
plot.actiRhythm_circadian
                        Plot Circadian Rhythm Profile
plot_actogram           Double-Plotted Actogram
plot_changepoints       Sleep / Wake Change-Point Track
plot_chisq              Plot the Chi-Square (Sokolove-Bushell)
                        Periodogram
plot_cosinor_ellipse    Cosinor Amplitude-Acrophase Confidence Ellipse
plot_cosinor_schematic
                        Annotated Cosinor Parameter Schematic
plot_dfa                Plot the Detrended Fluctuation Analysis (DFA)
                        Scaling Relationship
plot_dichotomy          Dichotomy Index Plot
plot_emd                Empirical Mode Decomposition Stack
plot_extended_cosinor   Plot the Extended (Marler) Cosinor Fit on the
                        24-Hour Activity Profile
plot_lids               LIDS Ultradian Cycle Curve
plot_mfdfa              Multifractal DFA Spectrum
plot_mse                Multiscale Entropy Curve
plot_multicomponent     Single Cosine vs Multicomponent Cosinor Fit
plot_multiscale         Multiscale IS and IV Profiles
plot_period_ci          Bootstrap Period Confidence Interval
plot_periodogram        Plot the Lomb-Scargle Periodogram with the
                        Endogenous Period
plot_phase_rose         Circular Phase Rose
plot_profile            Average-Day Profile with the L5 and M10 Windows
plot_raw_metrics        Raw-Acceleration Epoch Metrics Profile
plot_rest_comparison    Rest-Detector Comparison Strip
plot_spt                z-Angle Sleep-Period-Time Detection
plot_ssa_wcor           SSA w-Correlation Matrix
plot_transitions        Rest-Activity Transition Curves
plot_wavelet            Wavelet Power Scalogram
population.cosinor      Population-Mean Cosinor (Bingham)
print.actiRhythm_circadian
                        Print Method for Circadian Rhythm Results
print.actiRhythm_cosinor
                        Print method for cosinor analysis
print.actiRhythm_cosinor_extended
                        Print method for extended cosinor analysis
print.actiRhythm_dfa    Print Method for DFA Results
print.actiRhythm_mse    Print Method for Multiscale Entropy Results
raw.metrics             Raw-Acceleration Epoch Metrics (ENMO, MAD,
                        z-Angle)
read.actigraph.csv      Read an ActiGraph (ActiLife) Epoch CSV
read.agd                Read ActiGraph .agd File
read.raw                Activity Counts from a Raw Accelerometer File
                        (Any Supported Brand)
residual.spectrum       Residual Circadian Spectrum
rest.activity.fragmentation
                        Rest-Activity Bout Fragmentation
rest.crespo             Crespo Rest/Activity Period Detection
rest.hmm                State-Space (Hidden Markov) Rest-Activity Model
rest.periods            Consolidated Rest-Period Detection (Roenneberg
                        / MASDA)
rest.spt                Sleep-Period-Time Window from the z-Angle
                        (HDCZA)
rhythmicity.test        Cosinor Rhythmicity Test
rolling_mean            Rolling Mean
rolling_sd              Rolling Standard Deviation
rolling_sum             Rolling Sum
save.circadian.plot     Save a actiRhythm Plot to a File
scale_color_actiRhythm
                        ggplot2 Scale for actiRhythm Colors
scale_fill_actiRhythm   ggplot2 Fill Scale for actiRhythm Colors
set_actiRhythm_theme    Set actiRhythm Theme as Default
sib.vanhees             Sustained-Inactivity-Bout Sleep Scoring from
                        the z-Angle
sleep.changepoints      Change-Point Detection of Sleep and Wake Onsets
sleep.cole.kripke       Cole-Kripke Sleep/Wake Scoring
sleep.from.spt          Sleep Parameters from SPT and
                        Sustained-Inactivity Bouts
sleep.regularity.index
                        Calculate Sleep Regularity Index (SRI) -
                        Exported Version
sleep.sadeh             Sadeh Sleep/Wake Scoring
social.jet.lag          Calculate Social Jet Lag
sri.matrix              Sleep Regularity Index (SRI) - Phillips (2017)
                        Epoch-of-Day x Day Matrix
state.transitions       Rest-Activity State Transition Rates (kRA, kAR)
theme_actiRhythm        actiRhythm ggplot2 Theme
transition.probability
                        Rest-Active Transition Probabilities
ultradian.bandpower     Ultradian Wavelet Band Power
wavelet.coi             Wavelet Cone of Influence
write.agd               Write Activity Counts to an .agd File
